Taxonomic profiling of bacterial and archaeal communities from saliva and stool metagenomes

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Subject: GD

Envivo Bio, Inc.; Confidential

1.1 Overview of microbial community composition

Figure 1 is an interactive figure showing the microbial community composition in each collected sample. Here, each color and shade corresponds to a different genus. For reference, domestic dogs (Canis familiaris) and gray wolves (Canis lupus) are different species that belong to the same genus (Canis).

You can interact with this figure by:

• Hovering the cursor over a color in the stacked bar to see the taxonomic identity, sample type, and relative abundance corresponding to that color and bar
• Clicking and dragging the cursor over a portion of the figure to zoom
• Single-clicking a genus’s name in the legend to remove that genus from the figure
• Double-clicking (very quickly) a genus’s name in the legend to only show that genus

Figure 1: Microbial community composition of collected saliva and stool samples. Taxonomic composition is reported at the genus rank. Genera present at <1% relative abundance across all samples are reported as “Other genera”. Note: Blue = Firmicutes; Yellow = Actinomycetes; Green = Bacteroidetes; Red = Proteobacteria; Purple = all other phyla. Shades of the same color (except purple) correspond to different genera from the same phylum.

1.2 High-resolution snapshot of community composition

Figure 2 is an interactive figure showing the microbial community composition at higher taxononomic resolution. Here, each row corresponds to a unique microbe.

You can interact with this figure by:

• Hovering the cursor over a cell to see that microbe’s genus and species (and strain when available), relative abundance, and full taxonomic classification
• Clicking and dragging the cursor over a portion of the figure to zoom

Figure 2: Heat map showing relative abundance of microbes in each sample (N = 71 total identified). Each row corresponds to a unique microbe and each column corresponds to an individual sample. Note the relative abundance colorscale is in log units.

1.3 Notable microbes detected

• Streptococcus pneumoniae:
  • A known cause of pneumonia by inducing inflammation upon colonization of the lungs (reviewed in Loughran et al., 2019)
  • Composed ~11% of microbial community in analyzed saliva sample

1.4 References

Loughran, A.J., Orihuela, C.J., and Tuomanen, E.I. (2018) Streptococcus pneumoniae: Invasion and Inflammation. Microbiol Spectr 7: GPP3-0004–2018.